affyQCReport 1.37.0
Craig Parman
| Snapshot Date: 2013-03-24 17:01:43 -0700 (Sun, 24 Mar 2013) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/affyQCReport | | Last Changed Rev: 70052 / Revision: 74774 | | Last Changed Date: 2012-10-01 15:43:56 -0700 (Mon, 01 Oct 2012) |
| george2 | Linux (Ubuntu 12.04.1 LTS) / x86_64 | OK | [ OK ] | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | OK | OK | OK |
| petty | Mac OS X Leopard (10.5.8) / i386 | OK | OK | OK |
* using log directory ‘/home/biocbuild/bbs-2.12-bioc/meat/affyQCReport.Rcheck’
* using R version 3.0.0 beta (2013-03-19 r62328)
* using platform: x86_64-unknown-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘affyQCReport/DESCRIPTION’ ... OK
* this is package ‘affyQCReport’ version ‘1.37.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘affyQCReport’ can be installed ... [24s/25s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
borderQC1: warning in axis(1, label = ArrayIndex, at = seq(1 - 0.5,
length(ArrayIndex) - 0.5), cex = 0.2): partial argument match of
'label' to 'labels'
borderQC2: warning in axis(1, label = ArrayIndex, at = seq(1 - 0.5,
length(ArrayIndex) - 0.5), cex = 0.2): partial argument match of
'label' to 'labels'
correlationPlot: warning in axis(2, label = as.list(pretty(c, 10)), at
= seq(0, 1, by = (1/(length(pretty(c, 10)) - 1)))): partial argument
match of 'label' to 'labels'
correlationPlot: warning in axis(4, label =
as.list(attr(object@phenoData, which = "varLabels")[1:phenodepth]),
at = seq(1 - 0.5, phenodepth - 0.5), las = 1): partial argument match
of 'label' to 'labels'
signalDist: warning in legend(((temppar$xaxp[2] -
temppar$xaxp[1])/temppar$xaxp[3]) * (temppar$xaxp[3] - 1) +
temppar$xaxp[1], temppar$yaxp[2], as.character(ArrayIndex), lt =
1:length(ArrayIndex), col = 1:length(ArrayIndex), cex = 0.5): partial
argument match of 'lt' to 'lty'
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking examples ... [42s/44s] OK
Examples with CPU or elapsed time > 5s
user system elapsed
correlationPlot 15.725 0.288 17.348
signalDist 6.548 0.228 6.831
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK
NOTE: There was 1 note.
See
‘/home/biocbuild/bbs-2.12-bioc/meat/affyQCReport.Rcheck/00check.log’
for details.
* installing *source* package ‘affyQCReport’ ...
** R
** inst
** preparing package for lazy loading
No methods found in "Biobase" for requests: geneNames
** help
*** installing help indices
** building package indices
** installing vignettes
‘affyQCReport.Rnw’
** testing if installed package can be loaded
No methods found in "Biobase" for requests: geneNames
* DONE (affyQCReport)